On Mon, Aug 15, 2011 at 8:23 AM, Francis E Reyes
How unfortunate! Statistical model for missing atoms was dropping my R/Rfree about 10% (using 1.7.1-743).
Yeah, it tends to do that. . . although there is some debate about which R-factors should really be reported, given the difficulty of reproducing the lower values. The real benefit to this feature is improved map quality.
Is there a nightly that didn't drop use_statistical_model_for_missing_atoms but still has working secondary_structure nucleic acid restraints?
I'm not sure when this broke - in theory there were a couple of weeks overlap in June, but there may have been other problems with the missing atoms feature. Pavel would know for sure.
I guess the other option is to generate the restraints myself ....
This may be a good intermediate solution: http://rna.ucsc.edu/pdbrestraints/ I had meant to add an option to output the base pair restraints using the existing custom bond syntax, but haven't had time to do that yet. -Nat